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Cite MicrobeTrace
ikb6 edited this page Jan 20, 2022
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To Cite MicrobeTrace in academic literature, please use our paper:
Campbell et al. 2020. "MicrobeTrace: Retooling Molecular Epidemiology for Rapid Public Health Response" doi:10.1101/2020.07.22.216275
@article {Campbell2020.07.22.216275,
author = {Campbell, Ellsworth M. and Boyles, Anthony and Shankar, Anupama and Kim, Jay and Knyazev, Sergey and Switzer, William M.},
title = {MicrobeTrace: Retooling Molecular Epidemiology for Rapid Public Health Response},
elocation-id = {2020.07.22.216275},
year = {2020},
doi = {10.1101/2020.07.22.216275},
publisher = {Cold Spring Harbor Laboratory},
abstract = {Motivation Outbreak investigations use data from interviews, healthcare providers, laboratories and surveillance systems. However, integrated use of data from multiple sources requires a patchwork of software that present challenges in usability, interoperability, confidentiality, and cost. Rapid integration, visualization and analysis of data from multiple sources can guide effective public health interventions.Results We developed MicrobeTrace to facilitate rapid public health responses by overcoming barriers to data integration and exploration in molecular epidemiology. Using publicly available HIV sequences and other data, we demonstrate the analysis of viral genetic distance networks and introduce a novel approach to minimum spanning trees that simplifies results. We also illustrate the potential utility of MicrobeTrace in support of contact tracing by analyzing and displaying data from an outbreak of SARS-CoV-2 in South Korea in early 2020.Availability and Implementation MicrobeTrace is a web-based, client-side, JavaScript application (https://microbetrace.cdc.gov) that runs in Chromium-based browsers and remains fully-operational without an internet connection. MicrobeTrace is developed and actively maintained by the Centers for Disease Control and Prevention. The source code is available at https://github.com/cdcgov/microbetrace.Contact ells{at}cdc.govCompeting Interest StatementThe authors have declared no competing interest.},
URL = {https://www.biorxiv.org/content/early/2020/07/24/2020.07.22.216275},
eprint = {https://www.biorxiv.org/content/early/2020/07/24/2020.07.22.216275.full.pdf},
journal = {bioRxiv}
}
TY - JOUR
T1 - MicrobeTrace: Retooling Molecular Epidemiology for Rapid Public Health Response
JF - bioRxiv
DO - 10.1101/2020.07.22.216275
SP - 2020.07.22.216275
AU - Campbell, Ellsworth M.
AU - Boyles, Anthony
AU - Shankar, Anupama
AU - Kim, Jay
AU - Knyazev, Sergey
AU - Switzer, William M.
Y1 - 2020/01/01
UR - http://biorxiv.org/content/early/2020/07/24/2020.07.22.216275.abstract
N2 - Motivation Outbreak investigations use data from interviews, healthcare providers, laboratories and surveillance systems. However, integrated use of data from multiple sources requires a patchwork of software that present challenges in usability, interoperability, confidentiality, and cost. Rapid integration, visualization and analysis of data from multiple sources can guide effective public health interventions.Results We developed MicrobeTrace to facilitate rapid public health responses by overcoming barriers to data integration and exploration in molecular epidemiology. Using publicly available HIV sequences and other data, we demonstrate the analysis of viral genetic distance networks and introduce a novel approach to minimum spanning trees that simplifies results. We also illustrate the potential utility of MicrobeTrace in support of contact tracing by analyzing and displaying data from an outbreak of SARS-CoV-2 in South Korea in early 2020.Availability and Implementation MicrobeTrace is a web-based, client-side, JavaScript application (https://microbetrace.cdc.gov) that runs in Chromium-based browsers and remains fully-operational without an internet connection. MicrobeTrace is developed and actively maintained by the Centers for Disease Control and Prevention. The source code is available at https://github.com/cdcgov/microbetrace.Contact ells{at}cdc.govCompeting Interest StatementThe authors have declared no competing interest.
ER -
Copyright 2017-2020 Centers for Disease Control and Prevention • Acknowledgements